The Lower Murrumbidgee alluvial fan at the eastern edge of the Murray Basin is comprised of high-yielding coarse-grained aquifers and interlayered fine-grained deposits that exert an important control on recharge and vertical leakage of contaminants such as salt. Concerns over increasingly saline shallow groundwater, particularly in irrigation areas, has focused investigations on the depositional origin and spatial distribution of these fine-grained deposits (aquitard units), which may constitute both a source of leachable salt and a barrier to leakage. Detailed laboratory analysis of a minimally disturbed core to 83m depth, obtained from a drillhole adjacent to an irrigation bore, was augmented with geophysical investigations from this and other boreholes near the apex of the alluvial fan. Previously mapped clay units (aquitards) are redefined as clayey silts based on clay content variation between 10% and 30%. Mineralogical and lithostratigraphic evidence for three clayey silt units is presented: a lower unit (75-83m), a middle unit (45-64m) and an upper unit (0-16m). Electrical image surveys indicate that the upper unit is discontinuous, interrupted by large palaeodrainage features probably containing sands and gravels. These palaeodrainage channels are buried beneath a veneer of clay and significantly increase recharge and leakage. Some evidence suggests an aeolian component near the surface and within the middle clayey silt unit. However, mixing with fluvial deposits and subsequent weathering has also occurred. The clayey silt units are extensively weathered and oxidised, with the degree of oxidation increasing towards the surface and adjacent to aquifers saturated with oxygenated groundwater. Post-depositional weathering of the middle and lower units may also have been associated with leaching of salts. No salt remains in the middle and lower units, but 10.2 kg/m2 is stored within 15m of the surface at the Tubbo site. The upper clayey silt unit is a significant source of leachable salt, which is associated with increasing shallow groundwater salinity at some sites.